Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A12 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,999,380	T→C	N171S (AAC→AGC)	ygeR ←	LysM domain‑containing putative peptidase lipoprotein YgeR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,999,380	0	T	C	100.0%	108.3 / NA	30	N171S (AAC→AGC)	ygeR	LysM domain‑containing putative peptidase lipoprotein YgeR
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/10); total (20/10)

CCCCATAGTGGCGATTTTTTGCCCAGCCTTCACGCTTTGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGTTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTCCCTGTCGTTGGCCATA  >  NC_000913/2999244‑2999512

ccccGTAGTGGCGATTTTTTGCCCAGCCTTCACGCTTTGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGc                                                                                                                                   >  2:315225/1‑140 (MQ=255)

          gCGATTTTTTGCCCAGCCTTCACGCTTTGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATacac                                                                                                                         >  1:181431/1‑140 (MQ=255)

                          ccTTCACGCTTTGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCAccc                                                                                                         <  2:147998/140‑1 (MQ=255)

                               aCGCTTTGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCgcggc                                                                                                    <  2:214954/140‑1 (MQ=255)

                                    ttGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTaaa                                                                                               <  2:335903/140‑1 (MQ=255)

                                               ttACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTAccc                                                                                    >  1:180261/1‑140 (MQ=255)

                                                      cATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTaaa                                                                                               >  1:195492/1‑122 (MQ=255)

                                                      cATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTaaa                                                                                               <  2:195492/122‑1 (MQ=255)

                                                      cATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAg                                                                             >  2:127474/1‑140 (MQ=255)

                                                        tCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCt                                                                           >  2:229361/1‑140 (MQ=255)

                                                                     ggCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATcc                                                              >  1:399811/1‑140 (MQ=255)

                                                                                taatgtaatCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCTATCCCTTTATTgccg                                                   >  2:343551/1‑140 (MQ=255)

                                                                                taatgtaatCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTgccg                                                   >  2:118673/1‑140 (MQ=255)

                                                                                    gtaatCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCAt                                               <  2:180261/140‑1 (MQ=255)

                                                                                      aatCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATct                                             >  2:88848/1‑140 (MQ=255)

                                                                                       atCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATctg                                            >  1:259282/1‑140 (MQ=255)

                                                                                            cACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTc                                       >  2:139464/1‑140 (MQ=255)

                                                                                            cACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTc                                       >  2:231833/1‑140 (MQ=255)

                                                                                                 tgtTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATctg                                            >  2:27547/1‑130 (MQ=255)

                                                                                                 tgtTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATctg                                            <  1:27547/130‑1 (MQ=255)

                                                                                                 tgtTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATa                                  <  2:399811/140‑1 (MQ=255)

                                                                                                    ttAATCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACgg                               >  2:410321/1‑140 (MQ=255)

                                                                                                      aaTCATGATGAGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCa                             <  1:229361/140‑1 (MQ=255)

                                                                                                           tgatgaGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATa                        >  2:72083/1‑140 (MQ=255)

                                                                                                             atgaGATTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAAc                      >  1:216417/1‑140 (MQ=255)

                                                                                                                  aTTACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTcc                 >  1:238586/1‑140 (MQ=255)

                                                                                                                    tACCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTCCCt               >  2:26455/1‑140 (MQ=255)

                                                                                                                     aCCGTAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTCCCTg              >  1:510828/1‑140 (MQ=255)

                                                                                                                         tAGCCACGCAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTCCCTGTCGt          <  1:118673/140‑1 (MQ=255)

                                                                                                                                 cAGCTGGCTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTCCCTGTCGTTGGCCATa  <  1:315225/140‑1 (MQ=255)

CCCCATAGTGGCGATTTTTTGCCCAGCCTTCACGCTTTGCCCATTATTTACCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAGCTGGTTGCCCACATACACCACCTTTCCTGCACCCGCGGCGTAAATAGGTGTACCCCGTGGAGCTGAGATATCAATCCCTTTATTGCCGCCATCTGCTGTCGAATACGGCATGATAACTTTCCCTGTCGTTGGCCATA  >  NC_000913/2999244‑2999512

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A